“…Additional steps for sequence optimization or complete systematic reduction of accessory networks was required to retain the growth fitness of the small genome, thus potentially explaining why the reduced genome MDS42 grew as fast as the wild type genome did in minimal medium 12 , 22 , 33 . Because MDS42 exhibited a fixed periodicity for efficient growth in the transcriptome 33 and the sequence differences from the MG1655 counterpart ranging from single nucleotide substitutions to complete deletions, 46 we assumed that either a successful systematic loss of accessory networks or the sequence optimization owing to the serial transfer was achieved. Figure 6Hypothesis for genome reduction-correlated growth changes.…”
Genome reduction by removing dispensable genomic sequences in bacteria is commonly used in both fundamental and applied studies to determine the minimal genetic requirements for a living system or to develop highly efficient bioreactors. Nevertheless, whether and how the accumulative loss of dispensable genomic sequences disturbs bacterial growth remains unclear. To investigate the relationship between genome reduction and growth, a series of Escherichia coli strains carrying genomes reduced in a stepwise manner were used. Intensive growth analyses revealed that the accumulation of multiple genomic deletions caused decreases in the exponential growth rate and the saturated cell density in a deletion-length-dependent manner as well as gradual changes in the patterns of growth dynamics, regardless of the growth media. Accordingly, a perspective growth model linking genome evolution to genome engineering was proposed. This study provides the first demonstration of a quantitative connection between genomic sequence and bacterial growth, indicating that growth rate is potentially associated with dispensable genomic sequences.
“…Additional steps for sequence optimization or complete systematic reduction of accessory networks was required to retain the growth fitness of the small genome, thus potentially explaining why the reduced genome MDS42 grew as fast as the wild type genome did in minimal medium 12 , 22 , 33 . Because MDS42 exhibited a fixed periodicity for efficient growth in the transcriptome 33 and the sequence differences from the MG1655 counterpart ranging from single nucleotide substitutions to complete deletions, 46 we assumed that either a successful systematic loss of accessory networks or the sequence optimization owing to the serial transfer was achieved. Figure 6Hypothesis for genome reduction-correlated growth changes.…”
Genome reduction by removing dispensable genomic sequences in bacteria is commonly used in both fundamental and applied studies to determine the minimal genetic requirements for a living system or to develop highly efficient bioreactors. Nevertheless, whether and how the accumulative loss of dispensable genomic sequences disturbs bacterial growth remains unclear. To investigate the relationship between genome reduction and growth, a series of Escherichia coli strains carrying genomes reduced in a stepwise manner were used. Intensive growth analyses revealed that the accumulation of multiple genomic deletions caused decreases in the exponential growth rate and the saturated cell density in a deletion-length-dependent manner as well as gradual changes in the patterns of growth dynamics, regardless of the growth media. Accordingly, a perspective growth model linking genome evolution to genome engineering was proposed. This study provides the first demonstration of a quantitative connection between genomic sequence and bacterial growth, indicating that growth rate is potentially associated with dispensable genomic sequences.
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